General information for g3858.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3858 is located on chr_3: 28395908..28397217 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_3 | g3858 | g3858.t4 | isoform | g3858.t4 | 28395521 | 28396616 |
| chr_3 | g3858 | g3858.t4 | exon | g3858.t4.exon1 | 28395521 | 28395913 |
| chr_3 | g3858 | g3858.t4 | cds | g3858.t4.CDS1 | 28395610 | 28395913 |
| chr_3 | g3858 | g3858.t4 | exon | g3858.t4.exon2 | 28396007 | 28396176 |
| chr_3 | g3858 | g3858.t4 | cds | g3858.t4.CDS2 | 28396007 | 28396062 |
| chr_3 | g3858 | g3858.t4 | exon | g3858.t4.exon3 | 28396242 | 28396616 |
| chr_3 | g3858 | g3858.t4 | TSS | g3858.t4 | NA | NA |
| chr_3 | g3858 | g3858.t4 | TTS | g3858.t4 | NA | NA |
Sequences
>g3858.t4 Gene=g3858 Length=938
AGTAAGAATAATGAACCTTCTTTGAATAATCAATATATTAACAATTTAATTCTTTTTATT
AGTCAGTGACAATTACACTCGCATATCTTATGTATGCCAAAGATTTAGGCTTAAATGATG
CATTTACATTTGTACGTGCGAGAAAACCTGATATAAGTCCCAATTTCCATTTTATGGAGC
AACTTTATACTTTTGAACGTCAATTAAAAAATGATCCAAGCAGAAGAGCAACTCCTACAG
CATCGTCCACAGCTTCATCTGCTACAACGCCCTCAACGTTTAGCTCAAGTGCCACACCTT
CATCAGCCGGATCATCATTGAGAGATAATCGATATAATCGTTATCGACACATTAAATATT
CATGCGTTTGCAATGAAAATGAATGTAAGTGTCGATTCATCAATTTGTCATTTACTCATT
GTACTTTTTTTTGCAGGAATAGAATTTGATCTGCGTTCAGATACGAATACGCATACGCCC
AAATAAAATTAGGTGCGCGTTAAATGAGAAATGAATGAATTTGATTATTTTCTTTTTTCA
AAAAGGAAGGCAAATGATGTAAAATAACCTACTCAAAAGAAGAAAGAATATATATATATA
TATATATATTTTTAATGACAACCTTTATCTAAAAAATGCTATTTAACAAAGTAAAACAGT
CCCTAACATTTTAGCATATGTATTATAAATTCATGAACAATGAATAGGTGTATTTAACTC
TCTCCGTTTTCGATAAATTTTTAATTAATTTACATAAAAGGAGAGAAAGAATTTAAAAAA
ATTAAAGTGATGTATTTCTGTTAAAAAAGCCTACTACTGTTTACAAAATTATTCCTTAAA
TCAAGATGAAAAATTTCCATATTCGTGAATTCAATAATAATCAATAAAAACAACTAACAA
TGAAGCTTCTGTGTCAGATGAAACTTTGAAGCGAATTT
>g3858.t4 Gene=g3858 Length=119
MYAKDLGLNDAFTFVRARKPDISPNFHFMEQLYTFERQLKNDPSRRATPTASSTASSATT
PSTFSSSATPSSAGSSLRDNRYNRYRHIKYSCVCNENECKCRFINLSFTHCTFFCRNRI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g3858.t4 | Gene3D | G3DSA:3.90.190.10 | Protein tyrosine phosphatase superfamily | 1 | 64 | 2.6E-9 |
| 6 | g3858.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 39 | 77 | - |
| 5 | g3858.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 44 | 77 | - |
| 2 | g3858.t4 | PANTHER | PTHR10159 | DUAL SPECIFICITY PROTEIN PHOSPHATASE | 1 | 70 | 2.8E-15 |
| 3 | g3858.t4 | PANTHER | PTHR10159:SF517 | DUAL SPECIFICITY PROTEIN PHOSPHATASE MPK3 | 1 | 70 | 2.8E-15 |
| 1 | g3858.t4 | Pfam | PF00782 | Dual specificity phosphatase, catalytic domain | 1 | 38 | 2.0E-7 |
| 4 | g3858.t4 | SUPERFAMILY | SSF52799 | (Phosphotyrosine protein) phosphatases II | 1 | 42 | 2.16E-7 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
